Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0004424

Physical Location & Seq

Genomic Coordinates Reverse (-)

39238962 .. 39241991

Gene Structure 3030 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0228100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1416 bp

ATGGCTACAATATCACCTACCCAGCTTCTCCCTCTATCACCCCCAATTCATACTTCAAATTCCCGCTATGCCCATTTGAGCTTCCAATCCCTAAACCCTAACCCTAGAATTTTCTCATTCAACTCCTTTGTATCAAATTTTAGTCCTTTACCGGCGGTTCTGAGCTCTTCTCCGACCTCCACTGAATCCGACTCCGATAACGATGACGTCACTCTCCGGCGAATTTGCGAGCCCCATGTTCCGGACCACATACTGTGCAGAATGGAGGAATTGGGATACGTGGCGCCGACGCCGGTGCAGCGGCAAGCTCTGCCGACTCTGTTTTCCGGGCGGGACTGCATACTTCACGCCCAGACAGGTTCTGGGAAGACGCTGACGTATCTGCTTTTGATATTTGCTGTGGTGAAGACTCAGAGATCGGCTGTGCAAGCCCTCATTGTAGTGCCCACTAGGGAACTTGGCATGCAAGTTACAAGGGTTGCTAGAATGTTGGCGGCGAAGCCGAAGGAGGGTGAATTGGAGCAGAAAGGTTGTAGTGTTATGGCTCTTTTGGATGGAGGAATGTTGACAAGGCACAAGAGTTGGTTGAAGGCAGAGCCACCTACAATTGTTGTGGCGACTATAGGGAGTTTGTGCCAAATGCTTGAGAAGCGTATTATTAAACTTGAATCTATGCGAGTGCTGGTGATTGATGAGGTTGATTTTATGTTTGGTTCAAAACAAGTCAGTTCTCTTCGGAAGCTTTTGACATCATATTCGTCAATCAATAGCCGTCAGACTGTTTTTGCCAGTGCTTCCATTCCACAGCATAGGCGATTTTTACATGATTGTATACAACAGAAATGGACCAAGAATGATGCAATTCATATCCATGTCAATCCGGTTCAGCCGATGCCATCATGTTTACACCATAGATTTGTGATAAGTGGTAAAAACAGAAGGCATGAAACCTTGTTGTCCTTATTGCAGTCCGATGCACTGCAGTCTGGCATTATTTTTGTTGGTGAGCAGTCCGAGAAGTCAAAGAAGGCTGGAAATGCTCCACCAACAACTCTATTAGTTGATTTCTTGAAGGCTTCATATGAGGGATGTTCAGACATCCTCCTTTTGGAAGAAGACATGAATTTCAACTCACGTGCTGCTTCTCTATCAGAACTGAGACAAGGAAGCAGCTATCTTCTTGTGTCGACAGATATAGCGGCTAGAGGGGTTGACCTACCAGACACCACTCACATATACAACTTTGATCTACCAAGAACTGCTGTTGATTATCTTCATCGAGCTGGGAGGACAGGTAGGAAACCGTTTTCAGACAAGAAATGCACTGTAACCAACATTATAATGTCAGAGGAGCGATTTGTTTTGCAAAAATATGAAAATGAACTGATGTTTAACTGTGAAGAGCTAATTGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PTR2

Protein Analysis

471

Amino Acids

52.58

Weight (kDa)

8.6

Isoelectric Point (pI)

48.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	97 - 269	1.9e-32	DEAD/DEAH box helicase
ResIII	PF04851	98 - 233	1.1e-08	Type III restriction enzyme, res subunit
Helicase_C	PF00271	354 - 433	3.2e-16	Helicase conserved C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004424)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13400
fragaria_vesca	FvH4_4g22520 FvH4_4g22520 FvH4_4g22520 FvH4_4g22520 FvH4_4g22520 FvH4_4g22520 FvH4_4g22520 FvH4_4g22520 FvH4_4g22520
malus_domestica	MD13G1131800.v1.1 MD16G1142100.v1.1
prunus_persica	Prupe.1G213600_v2.0.a1 Prupe.1G213600_v2.0.a1 Prupe.1G213600_v2.0.a1 Prupe.1G213600_v2.0.a1
pyrus_communis	pycom13g11480 pycom16g11260
rosa_chinensis	RchiOBHm_Chr4g0428751
rosa_laevigata	RLG00000007129
rosa_multiflora	Rmu_co8494165.1_g000001 Rmu_sc0010032.1_g000002
rosa_roxburghii	Rroxscaffold_5G00370410
rosa_rugosa	Rorug04G0228000 Rorug04G0228100 Rorug04G0228100 Rorug04G0228200 Rorug04G0228300
rosa_samantha	Rh4AG285400 Rh4BG291400 Rh4DG288500
rosa_wichuraiana	Rw4G024750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1340
AatII	GACGTC	1 cut(s)	210
AccB1I	GGYRCC	1 cut(s)	283
AccI	GTMKAC	2 cut(s)	832, 1187
AccIII	TCCGGA	1 cut(s)	241
AciI	CCGC	6 cut(s)	64, 155, 301, 331, 494, 1199
AcsI	RAATTY	5 cut(s)	58, 108, 136, 222, 1123
AcvI	CACGTG	1 cut(s)	1136
AcyI	GRCGYC	3 cut(s)	207, 284, 290
AfiI	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
AgsI	TTSAA	7 cut(s)	57, 121, 589, 668, 717, 1072, 1129
AjuI	GAANNNNNNNTTGG	2 cut(s)	37, 69
AluBI	AGCT	8 cut(s)	25, 81, 165, 308, 742, 1173, 1283, 1405
AluI	AGCT	8 cut(s)	25, 81, 165, 308, 742, 1173, 1283, 1405
Alw21I	GWGCWC	1 cut(s)	167
Alw26I	GTCTC	1 cut(s)	1153
AlwNI	CAGNNNCTG	1 cut(s)	362
Aor13HI	TCCGGA	1 cut(s)	241
ApeKI	GCWGC	3 cut(s)	298, 1139, 1170
ApoI	RAATTY	5 cut(s)	58, 108, 136, 222, 1123
ArsI	GACNNNNNNTTYG	2 cut(s)	739, 771
AspLEI	GCGC	1 cut(s)	286
AspS9I	GGNCC	2 cut(s)	244, 846
AsuC2I	CCSGG	1 cut(s)	328
AsuHPI	GGTGA	6 cut(s)	6, 30, 415, 524, 697, 1016
AvaII	GGWCC	2 cut(s)	244, 846
BaeGI	GKGCMC	1 cut(s)	447
BanI	GGYRCC	1 cut(s)	283
BanII	GRGCYC	2 cut(s)	167, 234
BbrPI	CACGTG	1 cut(s)	1136
BbsI	GAAGAC	3 cut(s)	374, 413, 1122
Bbv12I	GWGCWC	1 cut(s)	167
BbvI	GCAGC	3 cut(s)	310, 1126, 1182
BccI	CCATC	2 cut(s)	548, 904
BceAI	ACGGC	1 cut(s)	756
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BciVI	GTATCC	1 cut(s)	269
BcnI	CCSGG	1 cut(s)	328
BcoDI	GTCTC	1 cut(s)	1153
BfaI	CTAG	4 cut(s)	105, 450, 483, 1203
BfmI	CTRYAG	2 cut(s)	621, 980
BfoI	RGCGCY	1 cut(s)	287
BfuI	GTATCC	1 cut(s)	269
BisI	GCNGC	6 cut(s)	299, 302, 495, 1140, 1171, 1200
BlsI	GCNGC	6 cut(s)	300, 303, 496, 1141, 1172, 1201
Bme1390I	CCNGG	1 cut(s)	328
Bme18I	GGWCC	2 cut(s)	244, 846
BmgT120I	GGNCC	2 cut(s)	244, 846
BmiI	GGNNCC	1 cut(s)	285
BmrFI	CCNGG	1 cut(s)	328
BmsI	GCATC	3 cut(s)	847, 882, 964
BpiI	GAAGAC	3 cut(s)	374, 413, 1122
BplI	GAGNNNNNCTC	2 cut(s)	154, 186
BpuEI	CTTGAG	1 cut(s)	665
BpuMI	CCSGG	1 cut(s)	328
BsaAI	YACGTR	2 cut(s)	280, 1136
BsaHI	GRCGYC	3 cut(s)	207, 284, 290
BsaWI	WCCGGW	2 cut(s)	241, 880
BsaXI	ACNNNNNCTCC	2 cut(s)	1279, 1309
Bsc4I	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
Bse118I	RCCGGY	2 cut(s)	151, 292
Bse1I	ACTGG	1 cut(s)	789
BseAI	TCCGGA	1 cut(s)	241
BseGI	GGATG	3 cut(s)	559, 1094, 1098
BseLI	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
BseMII	CTCAG	3 cut(s)	152, 425, 1148
BseNI	ACTGG	1 cut(s)	789
BseRI	GAGGAG	1 cut(s)	1364
BseSI	GKGCMC	1 cut(s)	447
BseXI	GCAGC	3 cut(s)	310, 1126, 1182
BseYI	CCCAGC	2 cut(s)	21, 1283
BsgI	GTGCAG	2 cut(s)	277, 317
BshNI	GGYRCC	1 cut(s)	283
BsiHKAI	GWGCWC	1 cut(s)	167
BsiSI	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
BslFI	GGGAC	1 cut(s)	347
BslI	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
BsmAI	GTCTC	1 cut(s)	1153
BsmFI	GGGAC	1 cut(s)	347
Bsp1286I	GDGCHC	3 cut(s)	167, 234, 447
Bsp13I	TCCGGA	1 cut(s)	241
Bsp143I	GATC	2 cut(s)	416, 1246
BspACI	CCGC	6 cut(s)	64, 155, 301, 331, 494, 1199
BspCNI	CTCAG	3 cut(s)	153, 424, 1149
BspEI	TCCGGA	1 cut(s)	241
BspLI	GGNNCC	1 cut(s)	285
BspMAI	CTGCAG	1 cut(s)	984
BspQI	GCTCTTC	2 cut(s)	172, 1395
BspT107I	GGYRCC	1 cut(s)	283
BsrFI	RCCGGY	2 cut(s)	151, 292
BsrI	ACTGG	1 cut(s)	789
BssAI	RCCGGY	2 cut(s)	151, 292
BssMI	GATC	2 cut(s)	416, 1246
BssNAI	GTATAC	1 cut(s)	833
BssNI	GRCGYC	3 cut(s)	207, 284, 290
Bst1107I	GTATAC	1 cut(s)	833
Bst4CI	ACNGT	5 cut(s)	255, 781, 1305, 1327, 1397
Bst6I	CTCTTC	3 cut(s)	172, 738, 1395
BstACI	GRCGYC	3 cut(s)	207, 284, 290
BstAPI	GCANNNNNTGC	1 cut(s)	310
BstBAI	YACGTR	2 cut(s)	280, 1136
BstC8I	GCNNGC	4 cut(s)	230, 306, 429, 464
BstDEI	CTNAG	3 cut(s)	161, 411, 1157
BstF5I	GGATG	3 cut(s)	559, 1094, 1098
BstH2I	RGCGCY	1 cut(s)	287
BstHHI	GCGC	1 cut(s)	286
BstKTI	GATC	2 cut(s)	419, 1249
BstMAI	GTCTC	1 cut(s)	1153
BstMBI	GATC	2 cut(s)	416, 1246
BstMWI	GCNNNNNNNGC	5 cut(s)	298, 310, 428, 649, 1037
BstNSI	RCATGY	1 cut(s)	466
BstSCI	CCNGG	1 cut(s)	326
BstSFI	CTRYAG	2 cut(s)	621, 980
BstSLI	GKGCMC	1 cut(s)	447
BstV1I	GCAGC	3 cut(s)	310, 1126, 1182
BstV2I	GAAGAC	3 cut(s)	374, 413, 1122
BstZ17I	GTATAC	1 cut(s)	833
BsuI	GTATCC	1 cut(s)	269
BtsCI	GGATG	3 cut(s)	559, 1094, 1098
BtsI	GCAGTG	1 cut(s)	977
BtsIMutI	CAGTG	4 cut(s)	180, 796, 977, 1323
Cac8I	GCNNGC	4 cut(s)	230, 306, 429, 464
CaiI	CAGNNNCTG	1 cut(s)	362
CfoI	GCGC	1 cut(s)	286
Cfr10I	RCCGGY	2 cut(s)	151, 292
Cfr13I	GGNCC	2 cut(s)	244, 846
CseI	GACGC	2 cut(s)	298, 379
CspCI	CAANNNNNGTGG	2 cut(s)	594, 629
CviAII	CATG	7 cut(s)	236, 463, 824, 872, 900, 944, 1120
DdeI	CTNAG	3 cut(s)	161, 411, 1157
DinI	GGCGCC	1 cut(s)	285
DpnI	GATC	2 cut(s)	418, 1248
DpnII	GATC	2 cut(s)	416, 1246
Eam1104I	CTCTTC	3 cut(s)	172, 738, 1395
EarI	CTCTTC	3 cut(s)	172, 738, 1395
Ecl136II	GAGCTC	1 cut(s)	165
Eco24I	GRGCYC	2 cut(s)	167, 234
Eco47I	GGWCC	2 cut(s)	244, 846
Eco53kI	GAGCTC	1 cut(s)	165
Eco72I	CACGTG	1 cut(s)	1136
EcoICRI	GAGCTC	1 cut(s)	165
EcoT38I	GRGCYC	2 cut(s)	167, 234
EgeI	GGCGCC	1 cut(s)	285
EheI	GGCGCC	1 cut(s)	285
FaeI	CATG	7 cut(s)	239, 466, 827, 875, 903, 947, 1123
FaqI	GGGAC	1 cut(s)	347
FatI	CATG	7 cut(s)	235, 462, 823, 871, 899, 943, 1119
FauI	CCCGC	2 cut(s)	71, 324
FauNDI	CATATG	1 cut(s)	1081
FblI	GTMKAC	2 cut(s)	832, 1187
Fnu4HI	GCNGC	6 cut(s)	299, 302, 495, 1140, 1171, 1200
FokI	GGATG	3 cut(s)	566, 1085, 1101
FriOI	GRGCYC	2 cut(s)	167, 234
Fsp4HI	GCNGC	6 cut(s)	299, 302, 495, 1140, 1171, 1200
FspBI	CTAG	4 cut(s)	105, 450, 483, 1203
GlaI	GCGC	1 cut(s)	285
GluI	GCNGC	6 cut(s)	299, 302, 495, 1140, 1171, 1200
GsaI	CCCAGC	2 cut(s)	25, 1287
HaeII	RGCGCY	1 cut(s)	287
HapII	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
HgaI	GACGC	2 cut(s)	298, 379
HhaI	GCGC	1 cut(s)	286
Hin1I	GRCGYC	3 cut(s)	207, 284, 290
Hin1II	CATG	7 cut(s)	239, 466, 827, 875, 903, 947, 1123
Hin6I	GCGC	1 cut(s)	284
HinP1I	GCGC	1 cut(s)	284
HincII	GTYRAC	3 cut(s)	567, 1188, 1213
HindII	GTYRAC	3 cut(s)	567, 1188, 1213
HindIII	AAGCTT	1 cut(s)	740
HinfI	GANTC	5 cut(s)	185, 191, 316, 409, 668
HpaII	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
HphI	GGTGA	6 cut(s)	6, 30, 415, 524, 697, 1016
Hpy166II	GTNNAC	5 cut(s)	567, 833, 905, 1188, 1213
Hpy188III	TCNNGA	2 cut(s)	242, 1069
Hpy8I	GTNNAC	5 cut(s)	567, 833, 905, 1188, 1213
Hpy99I	CGWCG	1 cut(s)	292
HpyAV	CCTTC	5 cut(s)	499, 583, 933, 1021, 1066
HpyCH4III	ACNGT	5 cut(s)	255, 781, 1305, 1327, 1397
HpyCH4IV	ACGT	4 cut(s)	207, 279, 377, 1135
HpyF10VI	GCNNNNNNNGC	5 cut(s)	298, 310, 428, 649, 1037
HpyF3I	CTNAG	3 cut(s)	161, 411, 1157
HpySE526I	ACGT	4 cut(s)	207, 279, 377, 1135
Hsp92I	GRCGYC	3 cut(s)	207, 284, 290
Hsp92II	CATG	7 cut(s)	239, 466, 827, 875, 903, 947, 1123
HspAI	GCGC	1 cut(s)	284
KasI	GGCGCC	1 cut(s)	283
Kpn2I	TCCGGA	1 cut(s)	241
Kzo9I	GATC	2 cut(s)	416, 1246
LguI	GCTCTTC	2 cut(s)	172, 1395
LmnI	GCTCC	3 cut(s)	520, 1045, 1351
Lsp1109I	GCAGC	3 cut(s)	310, 1126, 1182
LweI	GCATC	3 cut(s)	847, 882, 964
MaeI	CTAG	4 cut(s)	105, 450, 483, 1203
MaeII	ACGT	4 cut(s)	207, 279, 377, 1135
MaeIII	GTNAC	3 cut(s)	208, 469, 1327
MalI	GATC	2 cut(s)	418, 1248
MboI	GATC	2 cut(s)	416, 1246
MboII	GAAGA	9 cut(s)	159, 379, 418, 725, 1124, 1127, 1169, 1265, 1412
MfeI	CAATTG	1 cut(s)	606
MhlI	GDGCHC	3 cut(s)	167, 234, 447
Mly113I	GGCGCC	1 cut(s)	284
MlyI	GAGTC	3 cut(s)	185, 310, 403
MmeI	TCCRAC	2 cut(s)	197, 213
MroI	TCCGGA	1 cut(s)	241
MseI	TTAA	2 cut(s)	660, 1392
MslI	CAYNNNNRTG	3 cut(s)	440, 870, 1340
MspA1I	CMGCKG	1 cut(s)	301
MspI	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
MspR9I	CCNGG	1 cut(s)	328
MunI	CAATTG	1 cut(s)	606
MwoI	GCNNNNNNNGC	5 cut(s)	298, 310, 428, 649, 1037
NarI	GGCGCC	1 cut(s)	284
NciI	CCSGG	1 cut(s)	328
NdeI	CATATG	1 cut(s)	1081
NdeII	GATC	2 cut(s)	416, 1246
NlaIII	CATG	7 cut(s)	239, 466, 827, 875, 903, 947, 1123
NlaIV	GGNNCC	1 cut(s)	285
NmuCI	GTSAC	1 cut(s)	208
NspI	RCATGY	1 cut(s)	466
PaeI	GCATGC	1 cut(s)	466
PciSI	GCTCTTC	2 cut(s)	172, 1395
PfeI	GAWTC	2 cut(s)	185, 668
PkrI	GCNGC	6 cut(s)	300, 303, 496, 1141, 1172, 1201
PleI	GAGTC	3 cut(s)	185, 310, 403
PluTI	GGCGCC	1 cut(s)	287
PmaCI	CACGTG	1 cut(s)	1136
PmlI	CACGTG	1 cut(s)	1136
PpsI	GAGTC	3 cut(s)	185, 310, 403
Ppu21I	YACGTR	2 cut(s)	280, 1136
PsiI	TTATAA	1 cut(s)	1340
Psp124BI	GAGCTC	1 cut(s)	167
PspCI	CACGTG	1 cut(s)	1136
PspFI	CCCAGC	2 cut(s)	21, 1283
PspN4I	GGNNCC	1 cut(s)	285
PspPI	GGNCC	2 cut(s)	244, 846
PstI	CTGCAG	1 cut(s)	984
PstNI	CAGNNNCTG	1 cut(s)	362
RseI	CAYNNNNRTG	3 cut(s)	440, 870, 1340
SacI	GAGCTC	1 cut(s)	167
SalI	GTCGAC	1 cut(s)	1186
SapI	GCTCTTC	2 cut(s)	172, 1395
SaqAI	TTAA	2 cut(s)	660, 1392
SatI	GCNGC	6 cut(s)	299, 302, 495, 1140, 1171, 1200
Sau3AI	GATC	2 cut(s)	416, 1246
Sau96I	GGNCC	2 cut(s)	244, 846
SchI	GAGTC	3 cut(s)	185, 310, 403
ScrFI	CCNGG	1 cut(s)	328
SduI	GDGCHC	3 cut(s)	167, 234, 447
SfaNI	GCATC	3 cut(s)	847, 882, 964
SfcI	CTRYAG	2 cut(s)	621, 980
SfoI	GGCGCC	1 cut(s)	285
SgrAI	CRCCGGYG	1 cut(s)	292
SinI	GGWCC	2 cut(s)	244, 846
SmiMI	CAYNNNNRTG	3 cut(s)	440, 870, 1340
SmlI	CTYRAG	1 cut(s)	644
SmoI	CTYRAG	1 cut(s)	644
SphI	GCATGC	1 cut(s)	466
SsiI	CCGC	6 cut(s)	64, 155, 301, 331, 494, 1199
SspDI	GGCGCC	1 cut(s)	283
SspMI	CTAG	4 cut(s)	105, 450, 483, 1203
SstI	GAGCTC	1 cut(s)	167
StyD4I	CCNGG	1 cut(s)	326
TaaI	ACNGT	5 cut(s)	255, 781, 1305, 1327, 1397
TaiI	ACGT	4 cut(s)	210, 282, 380, 1138
TaqI	TCGA	2 cut(s)	1187, 1279
TauI	GCSGC	3 cut(s)	304, 497, 1202
TfiI	GAWTC	2 cut(s)	185, 668
Tru1I	TTAA	2 cut(s)	660, 1392
Tru9I	TTAA	2 cut(s)	660, 1392
TscAI	CASTG	4 cut(s)	187, 796, 984, 1330
TseFI	GTSAC	1 cut(s)	208
TseI	GCWGC	3 cut(s)	298, 1139, 1170
Tsp45I	GTSAC	1 cut(s)	208
TspDTI	ATGAA	8 cut(s)	38, 854, 960, 1068, 1136, 1265, 1389, 1395
TspRI	CASTG	4 cut(s)	187, 796, 984, 1330
VpaK11BI	GGWCC	2 cut(s)	244, 846
XapI	RAATTY	5 cut(s)	58, 108, 136, 222, 1123
XceI	RCATGY	1 cut(s)	466
XcmI	CCANNNNNNNNNTGG	1 cut(s)	359
XmiI	GTMKAC	2 cut(s)	832, 1187
XspI	CTAG	4 cut(s)	105, 450, 483, 1203
ZraI	GACGTC	1 cut(s)	208

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.